fastq compression tools of choice

4

Hi all,

I'll be trying out a few compression tools for fastq files.   So far on my list I have the following:

  1. dsrc
  2. lrzip
  3. gzip
  4. bgzf

Anyone have any good/poor experience with any of the above, or other options?

I'll be trying them all plotting compression ratio vs. (comp, decomp) cpu time, but I'm interested if anyone has a reason to not consider any of the above, or if there are other tools that should be considered.

Indexing and RAM usage are not of concern.

EDIT Oct 28, 2015:  We have tested lrzip, gzip, dsrc, bzip2, and others and found that by far dsrc is the best tool for fastq compression.   It is the fastest to compress and has the highest compression ratio.   Are there other folks out there using dsrc?

 

thanks,

RIchard

 

 

 


fatq


compression

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